Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_44102678-44103072.bed.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/272228f2a6fe982ce3fc6b74dd43f9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/edcc998f347eca1dd70ec8970f217a/custom_Sig_18_tumor_normal.manta.candidate_small_indels.vcf.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/edcc998f347eca1dd70ec8970f217a/custom_Sig_18_tumor_normal.manta.candidate_small_indels.vcf.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_tissue/Sig_18_tissue.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/regression_padded_intervals/scatter/chr21_44102678-44103072.bed.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_tissue/Sig_18_tissue.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/08/272228f2a6fe982ce3fc6b74dd43f9/.command.run
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_Blood/Sig_18_Blood.recalibrated.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/Sig_18_Blood/Sig_18_Blood.recalibrated.bam
==> STAGING COMPLETE (12 inputs)


Successfully created workflow run script.
To execute the workflow, run the following script and set appropriate options:

/var/tmp/strelka/runWorkflow.py
[2026-06-08T20:35:12.046536Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-08T20:35:12.048108Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-06-08T20:35:12.048143Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-08T20:35:12.048148Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-08T20:35:12.048152Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXqEKe7V'
[2026-06-08T20:35:12.048156Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-06-08T20:35:12.048161Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-08T20:35:12.048165Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-06-08T20:35:12.048168Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-08T20:35:12.048172Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-06-08T20:35:12.048175Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-08T20:35:12.048179Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-08T20:35:12.048182Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-08T20:35:12.048186Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-08T20:35:12.049122Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-08T20:35:12.049184Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-06-08T20:35:12.054827Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-06-08T20:35:12.055570Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-06-08T20:35:12.056000Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-08T20:35:12.056320Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-06-08T20:35:12.056502Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.057707Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.057990Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.058546Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.058691Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.058893Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.060842Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.061247Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-06-08T20:35:12.061419Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.061531Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072291Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072382Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072448Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072534Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072605Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072674Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072740Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072813Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072880Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.072924Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-06-08T20:35:12.093521Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.093789Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.094535Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.096119Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.096878Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.097226Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.100931Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:12.104527Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:35:12.104868Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.212681Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.212775Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.212803Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.213112Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.213958Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.216880Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.217172Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.218100Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.220613Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:12.281847Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.281950Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.281984Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.282281Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.285335Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.346614Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.662969Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.663872Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.666757Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:35:37.728146Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.728300Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.728412Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.728940Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.730929Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.731326Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-06-08T20:35:37.733745Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-06-08T20:35:37.734477Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-06-08T20:35:37.763827Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.763892Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.763914Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.764079Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.764496Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.767139Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-06-08T20:35:37.768115Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-06-08T20:35:37.796593Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.796655Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.796812Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:35:37.799024Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-06-08T20:35:37.828742Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:45.197154Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-06-08T20:36:00.168060Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-06-08T20:36:00.168060Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] 
[2026-06-08T20:36:00.168060Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-06-08T20:36:00.168165Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] 
[2026-06-08T20:36:00.168172Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-08T20:36:00.168181Z] [nf-08272228f2a6fe982ce3fc6b74dd43f9-69dbc-hvr8f] [697_1] [WorkflowRunner] Elapsed time for full workflow: 48 sec